Job ID = 12264867 SRX = SRX3032266 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 2748365 spots for SRR5863956/SRR5863956.sra Written 2748365 spots for SRR5863956/SRR5863956.sra fastq に変換しました。 bowtie でマッピング中... Your job 12264928 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:00:44 2748365 reads; of these: 2748365 (100.00%) were unpaired; of these: 787954 (28.67%) aligned 0 times 1527532 (55.58%) aligned exactly 1 time 432879 (15.75%) aligned >1 times 71.33% overall alignment rate Time searching: 00:00:44 Overall time: 00:00:44 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_rmdupse_core] 452956 / 1960411 = 0.2311 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 05:55:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 03 Apr 2021 05:55:34: #1 read tag files... INFO @ Sat, 03 Apr 2021 05:55:34: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 05:55:43: 1000000 INFO @ Sat, 03 Apr 2021 05:55:48: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 05:55:48: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 05:55:48: #1 total tags in treatment: 1507455 INFO @ Sat, 03 Apr 2021 05:55:48: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 05:55:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 05:55:48: #1 tags after filtering in treatment: 1507455 INFO @ Sat, 03 Apr 2021 05:55:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 05:55:48: #1 finished! INFO @ Sat, 03 Apr 2021 05:55:48: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 05:55:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 05:55:48: #2 number of paired peaks: 5874 INFO @ Sat, 03 Apr 2021 05:55:48: start model_add_line... INFO @ Sat, 03 Apr 2021 05:55:48: start X-correlation... INFO @ Sat, 03 Apr 2021 05:55:48: end of X-cor INFO @ Sat, 03 Apr 2021 05:55:48: #2 finished! INFO @ Sat, 03 Apr 2021 05:55:48: #2 predicted fragment length is 106 bps INFO @ Sat, 03 Apr 2021 05:55:48: #2 alternative fragment length(s) may be 106 bps INFO @ Sat, 03 Apr 2021 05:55:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.05_model.r INFO @ Sat, 03 Apr 2021 05:55:48: #3 Call peaks... INFO @ Sat, 03 Apr 2021 05:55:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 05:55:54: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 05:55:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.05_peaks.xls INFO @ Sat, 03 Apr 2021 05:55:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 05:55:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.05_summits.bed INFO @ Sat, 03 Apr 2021 05:55:57: Done! pass1 - making usageList (14 chroms): 4 millis pass2 - checking and writing primary data (7029 records, 4 fields): 19 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 05:56:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 03 Apr 2021 05:56:03: #1 read tag files... INFO @ Sat, 03 Apr 2021 05:56:03: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 05:56:12: 1000000 INFO @ Sat, 03 Apr 2021 05:56:16: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 05:56:16: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 05:56:16: #1 total tags in treatment: 1507455 INFO @ Sat, 03 Apr 2021 05:56:16: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 05:56:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 05:56:16: #1 tags after filtering in treatment: 1507455 INFO @ Sat, 03 Apr 2021 05:56:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 05:56:16: #1 finished! INFO @ Sat, 03 Apr 2021 05:56:16: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 05:56:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 05:56:17: #2 number of paired peaks: 5874 INFO @ Sat, 03 Apr 2021 05:56:17: start model_add_line... INFO @ Sat, 03 Apr 2021 05:56:17: start X-correlation... INFO @ Sat, 03 Apr 2021 05:56:17: end of X-cor INFO @ Sat, 03 Apr 2021 05:56:17: #2 finished! INFO @ Sat, 03 Apr 2021 05:56:17: #2 predicted fragment length is 106 bps INFO @ Sat, 03 Apr 2021 05:56:17: #2 alternative fragment length(s) may be 106 bps INFO @ Sat, 03 Apr 2021 05:56:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.10_model.r INFO @ Sat, 03 Apr 2021 05:56:17: #3 Call peaks... INFO @ Sat, 03 Apr 2021 05:56:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 05:56:22: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 05:56:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.10_peaks.xls INFO @ Sat, 03 Apr 2021 05:56:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 05:56:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.10_summits.bed INFO @ Sat, 03 Apr 2021 05:56:25: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2799 records, 4 fields): 23 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 05:56:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 03 Apr 2021 05:56:34: #1 read tag files... INFO @ Sat, 03 Apr 2021 05:56:34: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 05:56:42: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 05:56:47: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 05:56:47: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 05:56:47: #1 total tags in treatment: 1507455 INFO @ Sat, 03 Apr 2021 05:56:47: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 05:56:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 05:56:47: #1 tags after filtering in treatment: 1507455 INFO @ Sat, 03 Apr 2021 05:56:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 05:56:47: #1 finished! INFO @ Sat, 03 Apr 2021 05:56:47: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 05:56:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 05:56:47: #2 number of paired peaks: 5874 INFO @ Sat, 03 Apr 2021 05:56:47: start model_add_line... INFO @ Sat, 03 Apr 2021 05:56:47: start X-correlation... INFO @ Sat, 03 Apr 2021 05:56:47: end of X-cor INFO @ Sat, 03 Apr 2021 05:56:47: #2 finished! INFO @ Sat, 03 Apr 2021 05:56:47: #2 predicted fragment length is 106 bps INFO @ Sat, 03 Apr 2021 05:56:47: #2 alternative fragment length(s) may be 106 bps INFO @ Sat, 03 Apr 2021 05:56:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.20_model.r INFO @ Sat, 03 Apr 2021 05:56:47: #3 Call peaks... INFO @ Sat, 03 Apr 2021 05:56:47: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 05:56:52: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 05:56:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.20_peaks.xls INFO @ Sat, 03 Apr 2021 05:56:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 05:56:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032266/SRX3032266.20_summits.bed INFO @ Sat, 03 Apr 2021 05:56:55: Done! pass1 - making usageList (11 chroms): 2 millis pass2 - checking and writing primary data (502 records, 4 fields): 2 millis CompletedMACS2peakCalling